title: Complete nucleotide sequence of the self-transmissible TOL plasmid pD2RT provides new insight into arrangement of toluene catabolic plasmids.
abstract: In the present study we report the complete nucleotide sequence of the toluene catabolic plasmid pD2RT of Pseudomonas migulae strain D2RT isolated from Baltic Sea water. The pD2RT is 129,894 base pairs in size with an average G+C content of 53.75%. A total of 135 open reading frames (ORFs) were predicted to encode proteins, among them genes for catabolism of toluene, plasmid replication, maintenance and conjugative transfer. ORFs encoding proteins with putative functions in stress response, transposition and site-specific recombination were also predicted. Analysis of the organization and nucleotide sequence of pD2RT backbone region revealed high degree of similarity to the draft genome sequence data of the plant-pathogenic pseudomonad Pseudomonas syringae pv. glycinea strain B076, exhibiting relatedness to pPT23A plasmid family. The pD2RT backbone is also closely related to that of pGRT1 of Pseudomonas putida strain DOT-T1E and pBVIE04 of Burkholderia vietnamiensis strain G4, both plasmids are associated with resistance to toluene. The ability of pD2RT to self-transfer by conjugation to P. putida recipient strain PaW340 was experimentally determined. Genetic organization of toluene-degrading (xyl) genes and flanking DNA segments resembles the structure of Tn1721-related class II transposon Tn4656 of TOL plasmid pWW53 of P. putida strain MT53. The complete sequence of the plasmid pD2RT extends the known range of xyl genes carriers, being the first completely sequenced TOL plasmid, which is not related to well-studied IncP plasmid groups. We also verified the functionality of the catabolic route encoded by pD2RT by monitoring the expression of the xylE gene in pD2RT bearing hosts along with bacterial strains containing TOL plasmid of IncP-9 group. The growth kinetics of plasmid-bearing strains was found to be affected by particular TOL plasmid.
authors.affiliation: Department of Genetics, Institute of Molecular and Cell Biology, University of Tartu, Riia 23a, 51010 Tartu, Estonia. Electronic address: jekaterina.jutkina@ut.ee.
authors.forename: Jekaterina
authors.initials: J
authors.lastname: Jutkina
authors.forename: Lars Hestbjerg
authors.initials: LH
authors.lastname: Hansen
authors.forename: Lili
authors.initials: L
authors.lastname: Li
authors.forename: Eeva
authors.initials: E
authors.lastname: Heinaru
authors.forename: Eve
authors.initials: E
authors.lastname: Vedler
authors.forename: Merike
authors.initials: M
authors.lastname: Jõesaar
authors.forename: Ain
authors.initials: A
authors.lastname: Heinaru
mesh_terms: D059001:Aquatic Organisms / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D001483:Base Sequence; D001673:Biodegradation, Environmental; D019117:Burkholderia / Q000235:genetics; D004251:DNA Transposable Elements; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D010957:Plasmids; D011549:Pseudomonas / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D016958:Pseudomonas putida / Q000235:genetics; D044224:Pseudomonas syringae / Q000235:genetics; D016415:Sequence Alignment; D012689:Sequence Homology, Nucleic Acid; D014050:Toluene / Q000378:metabolism*; D014874:Water Pollutants, Chemical / Q000378:metabolism*
chemical_list: D004251:DNA Transposable Elements; D014874:Water Pollutants, Chemical; D014050:Toluene
keywords: Baltic Sea bacteria; Conjugal transfer; Pseudomonas migulae; TOL plasmid; Toluene catabolic genes